Locus 7191

Sequence ID	X_DroMel_CAF1
Location	18,009,122 – 18,009,231
Length	109
Max. P	0.938548

overview

Window 6

Location	18,009,122 – 18,009,231
Length	109
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	88.60
Mean single sequence MFE	-29.95
Consensus MFE	-24.26
Energy contribution	-23.95
Covariance contribution	-0.31
Combinations/Pair	1.14
Mean z-score	-1.37
Structure conservation index	0.81
SVM decision value	-0.03
SVM RNA-class probability	0.516002
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18009122 109 + 22224390
-----------AAGUUGGGUCAACUUUAUUUGCCGGAUUGAUGUCGUACUUAAUACUAAUUAAUGUACUUACAUGUCAGUGCUGUGCAAGUUUGCUUCGAGUGCUUCGUCCGGCAAAUUG
-----------((((((...)))))).(((((((((((..((((.(((((((((....))))).))))..))))...((..(((.(((....)))..).))..))..))))))))))).. ( -30.80)
>DroSec_CAF1 20586 109 + 1
-----------AAGUUGGGUCAACUUUAUUUGCCGGAUUGAUGUCGUACUUAAUACUAAUUGAUGUACUUACAUGUUAGUGCUGUGCGAGUUAGCAUCGAGAAAUUCGUCCGGAAAAUUG
-----------((((((...)))))).((((.(((((((((((((((((....(((((((..((((....)))))))))))..))))).....)))))))(.....).))))).)))).. ( -26.60)
>DroEre_CAF1 21453 106 + 1
-----------AAGUUGGGUCAACUUUAUUUGCCGGAUUGAUGUCGUACUUAAUACUAAUUGAUGUACUUACAUGUCACUGCUGUGCGAGUUUGCUUCGAGUG---CGUCCGGCAAAUUG
-----------((((((...)))))).(((((((((((..((((.(((((((((....))))).))))..))))(.((((.(...(((....)))...)))))---)))))))))))).. ( -29.10)
>DroYak_CAF1 8322 117 + 1
UAGCAAGUAGCAAGUUGGGUCAACUUUAUUUGCCGGAUUGAUGUCGUACUUAAUACUAAUUGAUGUACUUACAUGUCAGUGCUGUGUGAGUUCGCUUCGAGUG---CGUCCGGCAAAUUG
..((.....))((((((...)))))).((((((((((((((.(.((.(((((.(((..((((((((......))))))))...)))))))).))).)))....---.))))))))))).. ( -33.30)
>consensus
___________AAGUUGGGUCAACUUUAUUUGCCGGAUUGAUGUCGUACUUAAUACUAAUUGAUGUACUUACAUGUCAGUGCUGUGCGAGUUUGCUUCGAGUG___CGUCCGGCAAAUUG
...........((((((...)))))).(((((((((((((((((.(((((((((....))))).))))....)))))).......(((....)))............))))))))))).. (-24.26 = -23.95 +  -0.31)

alignment

secondary structure

dotplot

Window 7

Location	18,009,122 – 18,009,231
Length	109
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	88.60
Mean single sequence MFE	-24.86
Consensus MFE	-20.28
Energy contribution	-20.54
Covariance contribution	0.25
Combinations/Pair	1.00
Mean z-score	-2.24
Structure conservation index	0.82
SVM decision value	1.29
SVM RNA-class probability	0.938548
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18009122 109 - 22224390
CAAUUUGCCGGACGAAGCACUCGAAGCAAACUUGCACAGCACUGACAUGUAAGUACAUUAAUUAGUAUUAAGUACGACAUCAAUCCGGCAAAUAAAGUUGACCCAACUU-----------
..(((((((((((((.....)))..(((....))).......(((..(((..((((.(((((....))))))))).)))))).)))))))))).((((((...))))))----------- ( -27.60)
>DroSec_CAF1 20586 109 - 1
CAAUUUUCCGGACGAAUUUCUCGAUGCUAACUCGCACAGCACUAACAUGUAAGUACAUCAAUUAGUAUUAAGUACGACAUCAAUCCGGCAAAUAAAGUUGACCCAACUU-----------
..((((.(((((.((.....))((((.....(((.((.(((......))).(((((........)))))..)).)))))))..))))).)))).((((((...))))))----------- ( -19.00)
>DroEre_CAF1 21453 106 - 1
CAAUUUGCCGGACG---CACUCGAAGCAAACUCGCACAGCAGUGACAUGUAAGUACAUCAAUUAGUAUUAAGUACGACAUCAAUCCGGCAAAUAAAGUUGACCCAACUU-----------
..((((((((((.(---(((((...((......))...).)))).)((((..((((...............)))).))))...)))))))))).((((((...))))))----------- ( -26.56)
>DroYak_CAF1 8322 117 - 1
CAAUUUGCCGGACG---CACUCGAAGCGAACUCACACAGCACUGACAUGUAAGUACAUCAAUUAGUAUUAAGUACGACAUCAAUCCGGCAAAUAAAGUUGACCCAACUUGCUACUUGCUA
..((((((((((((---(.......)))............(((((.((((....))))...))))).................)))))))))).((((((...))))))((.....)).. ( -26.30)
>consensus
CAAUUUGCCGGACG___CACUCGAAGCAAACUCGCACAGCACUGACAUGUAAGUACAUCAAUUAGUAUUAAGUACGACAUCAAUCCGGCAAAUAAAGUUGACCCAACUU___________
..((((((((((.............((...........))......((((..((((...............)))).))))...)))))))))).((((((...))))))........... (-20.28 = -20.54 +   0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:32:22 2006